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Application Of Genome Reduction, Next Generation Sequencing, And Kaspar Genotyping In Development, Characterization, And Linkage Mapping Of Single Nucleotide Polymorphisms In The Grain Amaranths And Quinoa, Scott Matthew Smith
Theses and Dissertations
The grain amaranths (Amaranthus sp.) and quinoa (Chenopodium quinoa Willd.) are important seed crops in South America. These crops have gained international attention in recent years for their nutritional quality and tolerance to abiotic stress. We report the identification and development of functional single nucleotide polymorphism (SNP) assays for both amaranth and quinoa. SNPs were identified using a genome reduction protocol and next generation sequencing. SNP assays are based on KASPar genotyping chemistry and were detected using the Fluidigm dynamic array platform. A diversity screen consisting of 41 amaranth accessions showed that the minor allele frequency (MAF) of the amaranth …